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This further discredits the role of biased mutational pressure in setting the complexity equilibriums.
Furthermore, we examined the functional robustness of the motifs facing mutational pressure in silico and observed that the abundance pattern is biased by the degree of their evolvability.
The alternative "Codon Capture Hypothesis of Codon Reassignment" [ 52] assumes mutational pressure in the first step leading to codon losses in the genome.
Having the mutational pressure in terms of nucleotide turnover, one can estimate the selection pressure exerted on any sequence or position in codons.
During the simulation of mutational pressure, in one Monte Carlo Step (MCS) each nucleotide in the sequence was drawn with the probability equalling pmut, then it is substituted with the probability described by the substitution matrix.
In contrast to all other species analyzed, we found a mutational pressure in dog and stickleback, promoting an increase of GC-contents in the proximity to transcriptional start sites.
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The results strongly imply that genes in quadrants A and B are not only atypical in their current environments, but also highly similar to the external and internal mutational pressures in the other environment.
For example, in some organisms such as humans, GC3 content is correlated to GC of adjacent noncoding DNA, suggesting mutational pressures, in addition to selection, play a significant role in its codon usage profiles (Clay et al. 1996; Comeron 2004).
Some years ago, we examined the evolutionary properties of mtDNAs in metazoans, focusing on the asymmetrical mutational pressure occurring in mitochondrial genes.
In 1998, our group explored the mutational pressure occurring in mammalian mtDNAs, showing that base composition is asymmetrical between the two strands and along the genome (Reyes et al. 1998).
Although the exact mechanisms responsible for creating CG- and AT-skews like those observed in this study are still poorly understood, it is most likely created by the biases in mutational pressure owing to differences in the time spent as single-stranded DNA during both transcription and replication [ 74]).
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